Sequence
atgc intronic sequence ATGC exonic sequence...tcaaaactctaatgttttccacttcagcttccatcttcttattctaaccattcgagtgcctttttatgctcatgttcttatgttttgtttcatatatcagATCCAAAAAGCACTTGGCTGCAAAAAAAATCCTTTGGCTTATGATATTACAGCTGCATGTAGCGGATTTGTGTTGGGTCTAGTCTCAGCTGCTTGTCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0154g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G44350.1 (Glycine max), 3'ss of exon 3
--tcaaaact--ctaatgttttc----cacttcagcttccatcttcttattctaaccattcgagtgcctttttatgctcatgttcttatgttttgtttcatatatcagATCCAAAAAGCACTTGGCTGCAAAAAAAATCCTTTGGCTTATGATATTACAGCTGCATGTAGCGGATTTGTGTTGGGTCTAGTCTCAGCTGCTTGTCATA-
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gattatagcttattattgtattcatatctctccaagattgagcgtcttcttttcatttctggaac-ctctcctataatt-tattgtcat----tacaacatg---cagaTTCAAAAACAACTTGGCTGCAAAGCAAATCCATTGTCTTATGACATTACAGCTGCATGTAGTGGATTTGTGTTGGGTTTAATATCAGCTGCTTGTCACAT
upper sequence: Vv02s0154g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G41380.1 (Glycine max), 3'ss of exon 3
--tcaaaactctaatgttttccacttcagcttccatcttc----ttattctaaccattcgagtgcctttttatgctcatgttcttatgttttgtttcatatatcagATCCAAAAAGCACTTGGCTGCAAAAAAAATCCTTTGGCTTATGATATTACAGCTGCATGTAGCGGATTTGTGTTGGGTCTAGTCTCAGCTGCTTGTCATA
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gattatagct-tattattgtatccatagctctccaagattgggtgtcttcttttcatttatggaacctcttgta-taatattattgt-cattacaacatg---cagATTCAAAAACAGCTTGGCTGCAAAACAAATCCATTGTCTTATGACATTACAGCTGCATGTAGTGGATTTGTGTTGGGTTTAATATCAGCTGCTTGCCACA
upper sequence: Vv02s0154g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G00550.1 (Glycine max), 3'ss of exon 2
tcaaaactctaatgttttccacttcagcttccatct-tcttattctaaccattcgagtgcctttttatgctcatgttcttatgttttgtttcatatatcagATCCAAAAAGCACTTGGCTGCAAAAAAAATCCTTTGGCTTATGATATTACAGCTGCATGTAGCGGATTTGTGTTGGGTCTAGTCTCAGCTGCTTGTCATA
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-----gtatgtacatcttcacaataattctctggctaccctttgctaagtaatc---ttcttttttatttctgtatcctc---tcttatacaacttg-cagATTCCAATACAACTTGGCTGCAAAAAAAATCCATTGTCTTATGACATTACAGCTGCATGTAGTGGATTTCTGCTGGGTTTAATATCATCTTCTTGTCACA
upper sequence: Vv02s0154g00140.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G62640.1 (Arabidopsis thaliana), 3'ss of exon 3
tcaaaactctaatgttttccacttcagcttccatcttcttattctaaccattcgagtgcctttttatgctcatgttcttatgttttgtttcatatatcagATCCAAAAAGCACTTGGCTGCAAAAAAAATCCTTTGGCTTATGATATTACAGCTGCATGTAGCGGATTTGTGTTGGGTCTAGTCTCAGCTGCTTGTCATA
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---------gtatttattgacccttaattctaaaatttctcttcggtggagtaagatttcccgttgt--ttgattcgcgataactgtctattgatggcagATTCAAAAGGCACTTGGTTGCACAAAGAACCCATTGGCTTATGATATCACAGCTGCTTGTAGTGGATTTGTTTTGGGTCTAGTTTCAGCTGCTTGTCATAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|71864497|gb|DT013552.1|DT013552EST: TCTTGATGTGTACATCTACTCCAGAGGATCTTTTTGGTAGTGCTCCTCAG ATCCAAAAAGCACTTGGCTGC
genomic: TCTTGATGTGTACATCTACTCCAGAGGATCTTTTTGGTAGTGCTCCTCAGgtataagact ... catatatcagATCCAAAAAGCACTTGGCTGC
EST:
gi|110394481|gb|EC959504.1|EC959504EST: TCTTGATGTGTACATCTACTCCAGAGGATCTTTTCGGTAGTGCTCCTCAG ATCCAAAAAGCACTTGGCTGCNNNNNNNNTCCTTTGGCTTACGATATTACA
genomic: TCTTGATGTGTACATCTACTCCAGAGGATCTTTTTGGTAGTGCTCCTCAGgtataagact ... catatatcagATCCAAAAAGCACTTGGCTGCAAAAAAAATCCTTTGGCTTATGATATTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccattcgagtgcctttttatgctcatgttcttatgttttgtttcatatatcagATCCAAAAAGCACTTGGCTGCAAAAAAAATCCTTTGGCTTATGATATTACAGCTGCATGTAGCGGATTTGTGTTGGGTCTAGTCTCAGCTGCTTGTCATA
ttctaac putative branch site (score: 1)
ttttgtttc putative PPT
ttttgtttcatatat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaaaactctaatgttttccacttcagcttccatcttcttattctaaccattcgagtgcctttttatgctcatgttcttatgttttgtttcatatatcagATCCAAAAAGCACTTGGCTGCAAAAAAAATCCTTTGGCTTATGATATTACAGCTGCATGTAGCGGATTTGTGTTGGGTCTAGTCTCAGCTGCTTGTCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- aaaactc
- - - - - - - - - ccacttc
- - - - - - - - - - - - - gcttcca
- - - - - - - - - - - - - - - - - - - - - -ctaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgttc